2020-03-05 09:29:23 +00:00
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name: Shovill
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description: Create a bacterial assembly from paired fastq using shovill
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keywords:
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- Genome Assembly
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- Bacterial Isolates
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tools:
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- fastqc:
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description: |
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Shovill assembles bacterial isolate genomes from Illumina
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paired-end reads. Shovill uses the SPAdes genome assembler,
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providing pre and post-processing to the SPAdes assembly.
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It also supports SKESA, Velvet and Megahit.
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homepage: https://github.com/tseemann/shovill
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documentation: https://github.com/tseemann/shovill/blob/master/README.md
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input:
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-
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- sample_id:
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type: string
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description: Sample identifier
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- reads:
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type: file
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description: pair of fastq files
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output:
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-
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- assembly:
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type: file
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description: fasta file
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pattern: ${sample_id}.fasta
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authors:
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2020-07-11 11:54:12 +00:00
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- "@annacprice"
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